Tomato promoter identification

Tomato finished BACs (v91, 220 BACs) were downloaded from SGN. Gene prediction program FGENESH from SoftBerry, INC. was used to predict gene coding regions (CDS) for these BACs. As illustrated in the following figure, sequences from the end of the previous gene - Gene 1 (immediately after the stop codon), till the base immediately before the transcription start site (TSS) of the interesting gene - Gene 2 (Figure A), or sequences immediately before the TSS of the previous gene - Gene 1 till the base immediately before the (TSS) of the interesting gene - Gene 2 (Figure B), were extracted as promoter region of Gene 2.